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NCBI Reference Sequence: NZ_VDBG01000077.1
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LOCUS NZ_VDBG01000077 7483 bp DNA linear CON 23-NOV-2024 DEFINITION Escherichia coli strain EC_80 EC80_77, whole genome shotgun sequence. ACCESSION NZ_VDBG01000077 NZ_VDBG01000000 VERSION NZ_VDBG01000077.1 DBLINK BioProject: PRJNA224116 BioSample: SAMN11855603 Assembly: GCF_019583735.1 KEYWORDS WGS; RefSeq. SOURCE Escherichia coli ORGANISM Escherichia coli Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Escherichia. REFERENCE 1 (bases 1 to 7483) AUTHORS Ikhimiukor,O., Vollmers,J., Adeleke,R.A., Kaster,A.-K., Mueller,J.A. and Adelowo,O. TITLE Antibiotic resistant Enterobacteriaceae from E-waste dumpsites, Nigeria JOURNAL Unpublished REFERENCE 2 (bases 1 to 7483) AUTHORS Ikhimiukor,O., Vollmers,J., Adeleke,R.A., Kaster,A.-K., Mueller,J.A. and Adelowo,O. TITLE Direct Submission JOURNAL Submitted (29-APR-2020) Department of Environmental Biotechnology, University of Ibadan, Nigeria, Agbowo, Ibadan, Oyo State 200218, Nigeria COMMENT REFSEQ INFORMATION: The reference sequence is identical to VDBG01000077.1. The annotation was added by the NCBI Prokaryotic Genome Annotation Pipeline (PGAP). Information about PGAP can be found here: https://www.ncbi.nlm.nih.gov/genome/annotation_prok/ ##Genome-Assembly-Data-START## Assembly Method :: SPAdes v. 3.13.0 Genome Representation :: Full Expected Final Version :: Yes Genome Coverage :: 137.557114625718x Sequencing Technology :: Illumina HiSeq ##Genome-Assembly-Data-END## ##Genome-Annotation-Data-START## Annotation Provider :: NCBI RefSeq Annotation Name :: GCF_019583735.1-RS_2024_11_20 Annotation Date :: 11/20/2024 00:13:01 Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline (PGAP) Annotation Method :: Best-placed reference protein set; GeneMarkS-2+ Annotation Software revision :: 6.9 Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA Genes (total) :: 4,993 CDSs (total) :: 4,869 Genes (coding) :: 4,564 CDSs (with protein) :: 4,564 Genes (RNA) :: 124 rRNAs :: 8, 9, 15 (5S, 16S, 23S) complete rRNAs :: 3 (5S) partial rRNAs :: 5, 9, 15 (5S, 16S, 23S) tRNAs :: 85 ncRNAs :: 7 Pseudo Genes (total) :: 305 CDSs (without protein) :: 305 Pseudo Genes (ambiguous residues) :: 0 of 305 Pseudo Genes (frameshifted) :: 77 of 305 Pseudo Genes (incomplete) :: 229 of 305 Pseudo Genes (internal stop) :: 35 of 305 Pseudo Genes (multiple problems) :: 34 of 305 Pseudo Genes (short protein) :: 1 of 305 CRISPR Arrays :: 2 ##Genome-Annotation-Data-END## FEATURES Location/Qualifiers source 1..7483 /organism="Escherichia coli" /mol_type="genomic DNA" /submitter_seqid="EC80_77" /strain="EC_80" /isolation_source="water from electronic waste dumpsite" /db_xref="taxon:562" /geo_loc_name="Nigeria: Lagos" /lat_lon="6.461 N 3.191 E" /collection_date="2017-08-10" /collected_by="Ikhimiukor Odion" gene <1..95 /locus_tag="FHB95_RS23090" /old_locus_tag="FHB95_22985" /pseudo CDS <1..95 /locus_tag="FHB95_RS23090" /old_locus_tag="FHB95_22985" /inference="COORDINATES: similar to AA sequence:RefSeq:WP_020324562.1" /note="incomplete; too short partial abutting assembly gap; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology." /pseudo /codon_start=3 /transl_table=11 /product="IS6 family transposase" gene 135..1280 /locus_tag="FHB95_RS23095" /old_locus_tag="FHB95_22990" CDS 135..1280 /locus_tag="FHB95_RS23095" /old_locus_tag="FHB95_22990" /inference="COORDINATES: protein motif:HMM:NF023401.5" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="6-phospho-alpha-glucosidase" /protein_id="WP_220414389.1" /translation="MQQCQFVYTTDKETAFSDADFFFIQIRTGGLAMRELDEQIPLFY GCVGQETCGAGGMAYGLRSIGDMITLVNDIRHFAPDAWILNYTNPAAIVAEALQREFP HDNRILNICDMPAAIMVSYAQLLGCEIWDLVPEYFGLNHFGWFTKVRNREGVDLTAEL KRIILEEGISAVDPEIADDPSWQATFKNMQTMLKDNPEYLPNTYLQYYLYPEKMVEKE DIANTRARQVINGREKRVFSLNERIIAAGTTANEHLHADIHGRYMVRVAASLAYNRGE TYLVIVPNDGAIPNIQNDAMVEVPAALTNDGPKRFAVGTIPTFQKALIEGQLGYEKLV VDAWFSGDRQTLVNALTLNRTVVDVPKAQQIVDELLRVNGDYLPQFH" gene 1332..2888 /locus_tag="FHB95_RS23100" /old_locus_tag="FHB95_22995" CDS 1332..2888 /locus_tag="FHB95_RS23100" /old_locus_tag="FHB95_22995" /EC_number="2.7.1.-" /inference="COORDINATES: similar to AA sequence:RefSeq:WP_004098811.1" /GO_function="GO:0015144 - carbohydrate transmembrane transporter activity [Evidence IEA]" /GO_process="GO:0009401 - phosphoenolpyruvate-dependent sugar phosphotransferase system [Evidence IEA]" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="alpha-glucoside-specific PTS transporter subunit IIBC" /protein_id="WP_004098811.1" /translation="MKDIIQRFGAAMFVPVLLFPAAGMLLGLSVMLLNQDLFPWAVEG SAWVKVSTILLQASLAVFKNMALVFAVGLPIALAKSASGRAVLATLVSYITFNYVIGG ILQFWGPELGVNYVEGERGLTDVGGILTLDTNLLGAIVIASLSVWVHNRFFDKKLPNW AAVFGGTPLVVIVSFPIIVLMAIITCFTWPSIQHGINNLQTFLVGAGSFGVWMFTFLE RIMIPTGLHHFVYGPVFYGPVAVDGGTVAHWIQNIQNFASNPAPLTEQFPQGGLMLTG MGKVFGCTGIAMALYATAKPENKKMVLGLVLGAALTAILTGITEPIEFTFLFIAPALF ALHAVLAATMATIAYWFGVSGNFQTGLIDFIFQNWLPLGSLHGDTYIVQVLIGLSFTA IYFVVFRALIVKFDIPTPGRGSAEAKLYTKADYKGAQQNDSSSGVIDGGQASAFIEGL GGKDNIALLTNCATRLRIKVHEPEKVAETQYFQEHGAVNMVRNGDSFQIIVGLTVPQV REEMTQLIRA" gene 2960..>3241 /locus_tag="FHB95_RS23105" /old_locus_tag="FHB95_23000" /pseudo CDS 2960..>3241 /locus_tag="FHB95_RS23105" /old_locus_tag="FHB95_23000" /inference="COORDINATES: similar to AA sequence:RefSeq:WP_012472779.1" /GO_function="GO:0004803 - transposase activity [Evidence IEA]" /GO_process="GO:0006313 - DNA transposition [Evidence IEA]" /note="incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology." /pseudo /codon_start=1 /transl_table=11 /product="IS6-like element IS26 family transposase" gene complement(<3241..>3429) /locus_tag="FHB95_RS24870" /old_locus_tag="FHB95_23005" /pseudo CDS complement(<3241..>3429) /locus_tag="FHB95_RS24870" /old_locus_tag="FHB95_23005" /inference="COORDINATES: similar to AA sequence:RefSeq:WP_000008826.1" /GO_function="GO:0004803 - transposase activity [Evidence IEA]" /GO_process="GO:0006313 - DNA transposition [Evidence IEA]" /note="incomplete; partial in the middle of a contig; missing N-terminus and C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology." /pseudo /codon_start=1 /transl_table=11 /product="Tn3 family transposase" gene complement(3683..4960) /locus_tag="FHB95_RS23115" /old_locus_tag="FHB95_23010" CDS complement(3683..4960) /locus_tag="FHB95_RS23115" /old_locus_tag="FHB95_23010" /inference="COORDINATES: similar to AA sequence:RefSeq:WP_016239947.1" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="DUF2254 domain-containing protein" /protein_id="WP_045890830.1" /translation="MISRWQWILRQTLKKLWFRATLFAMVAIITALLSILFRSMIPES VSVKVGAEAVDNILNILASSMLAVTTFSLSIMVTAYGSATTNVTPRATRLVVEDVTTQ NVLATFIGSFLFSLVGIIALNMGAYGERGRVILFIVTLVVIALIIITLLRWIQHLTSL GRVGETTAKVEQAAIETFIARAKSPCLGGYPWLENNEQPKGTVAVYPEKIGYVEYIDM VKLGSLLSNDPRHVYLVAQPGSFIHPSMPVLYLSSGQESSICTDLLETIIVSDVRSFA QDPRFCLSVMAEIACRALSPAVNDPGTAIDVIGRGVRILSAYAQNKIDETEVIYPSVH VAPLQIKDLLEDFFLPVARDGASMREIQIRVLKGLSMLSKGWPGMFAEAAHILASETL EHATRTGHIAHDEYLIKSIYYNLFSGENPNKKP" gene complement(5024..7021) /locus_tag="FHB95_RS23120" /old_locus_tag="FHB95_23015" CDS complement(5024..7021) /locus_tag="FHB95_RS23120" /old_locus_tag="FHB95_23015" /inference="COORDINATES: similar to AA sequence:RefSeq:WP_004119118.1" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="BCCT family transporter" /protein_id="WP_008325030.1" /translation="MSENDTIQKKSKSQINKAVFFTSALLIFLLVAFAAVFPDVADKN FKLLQQQIFTNASWFYILAVALILLSVSFLGLSRYGDIKLGPDHAQPDFSYHSWFAML FSAGMGIGLMFFGVAEPVMHYLSPPVGTPETVAAAKEAMRLTFFHWGLHAWAIYAIVA LILAFFSYRHGLPLTLRSALYPIIGERIYGPVGHAVDIFAVIGTVFGVATSLGYGVLQ VNAGLNHLFGVPINETVQVILIVVITGLATISVVSGLDKGIRILSELNLGLAVLLLAL VLCLGPTVLLLKSFVENTGGYLSELVSKTFNLYAYEPKSSNWLGGWTLLYWGWWLSWS PFVGMFIARVSRGRTIREFVTGVLFVPAGFTLMWMTVFGNSAIYLIMHQGAADLANTV QQDVALALFNFLEHFPFSSVLSFIAMAMVIVFFVTSADSGAMVVDTLASGGVANTPVW QRIFWASLIGIVAIALLIAGGLSALQTVTIASALPFSVILLISIYGLLKALRRDLTKR ESLSMATIAPTAARNPIPWQRRLRNIAYLPKRSLVKRFMGDVIQPAMTLVQEELNKQG TISHISDTDDERIRLEVDLGNELNFIYEVRLRGYNSPAFAMAAMDNDEQQAEQHRYYR AEVYLKEGGQNYDVMGWNQEQLINDILDQYEKHLHFLHLVR" CONTIG join(VDBG01000077.1:1..7483) //
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